Invoking: getsize /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa 1> $metrics Finished invoke: name: count_seqs status: 0 time: 0.022653 Invoking: fasta-most -min 50 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa 1> $metrics Finished invoke: name: most_seqs status: 0 time: 0.059697 Invoking: fasta-center -dna -len 100 < /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/seqs-centered Finished invoke: name: center_seqs status: 0 time: 0.081445 Invoking: fasta-shuffle-letters /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/seqs-centered /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/seqs-shuffled -kmer 2 -tag -dinuc -dna -seed 1 Finished invoke: name: shuffle_seqs status: 0 time: 0.014407 Invoking: fasta-subsample /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/seqs-centered 600 -rest /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/seqs-discarded -seed 1 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/seqs-sampled Finished invoke: name: sample_seqs status: 0 time: 0.066587 Invoking: fasta-get-markov -nostatus -nosummary -dna -m 1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background Finished invoke: name: bg status: 0 time: 0.018483 Invoking: meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background -dna -revcomp -nostatus Finished invoke: name: meme status: 0 time: 1016.176605 Invoking: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/seqs-shuffled Finished invoke: name: dreme status: 0 time: 35.738837 Invoking: centrimo -seqlen 658 -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/centrimo_out -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml Finished invoke: name: centrimo status: 0 time: 0.118599 Invoking: tomtom -verbosity 1 -text -thresh 0.1 /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/combined.meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/combined.meme 1> /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/motif_alignment.txt Finished invoke: name: align status: 0 time: 0.428455 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/spamo_out_1 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background -primary AAAAAAWAYGCCCMNDSBGGGRDTCGAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo1 status: 0 time: 0.328311 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/spamo_out_2 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background -primary STTGGCCBAGTBGKTWAAGSS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo2 status: 0 time: 0.30674 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/spamo_out_3 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background -primary GCGCCCATTCTGACCATTAAACTATCACGG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo3 status: 0 time: 0.245186 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/spamo_out_4 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background -primary TCTTGR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo4 status: 0 time: 0.318933 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/spamo_out_5 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background -primary CCWTAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo5 status: 0 time: 0.184087 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/spamo_out_6 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background -primary GTGGTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo6 status: 0 time: 0.286036 Invoking: spamo -verbosity 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/spamo_out_7 -bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background -primary CTTGTM /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml Finished invoke: name: spamo7 status: 0 time: 0.315019 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/fimo_out_1 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background --motif AAAAAAWAYGCCCMNDSBGGGRDTCGAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa Finished invoke: name: fimo1 status: 0 time: 0.494606 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/fimo_out_2 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background --motif STTGGCCBAGTBGKTWAAGSS /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa Finished invoke: name: fimo2 status: 0 time: 0.485812 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/fimo_out_3 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background --motif GCGCCCATTCTGACCATTAAACTATCACGG /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme_out/meme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa Finished invoke: name: fimo3 status: 0 time: 0.485728 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/fimo_out_4 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background --motif TCTTGR /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa Finished invoke: name: fimo4 status: 0 time: 0.351493 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/fimo_out_5 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background --motif CCWTAACC /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa Finished invoke: name: fimo5 status: 0 time: 0.377164 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/fimo_out_6 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background --motif GTGGTA /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa Finished invoke: name: fimo6 status: 0 time: 0.356319 Invoking: fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/fimo_out_7 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/background --motif CTTGTM /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/YJM789--RPD3.fa Finished invoke: name: fimo7 status: 0 time: 0.352577 Writing output Invoking: meme-chip_html_to_tsv /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/meme-chip.html /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--RPD3/summary.tsv Finished invoke: name: summary status: 0 time: 0.149857 Done